Mackenzie Weygandt Mathis

Mackenzie W. Mathis, is an American neuroscientist and principal investigator at the École Polytechnique Fédérale de Lausanne. Her lab investigates the neural basis of adaptive motor behaviors in mice to inform future translational research in neurological diseases.

Mackenzie W. Mathis
NationalityAmerican
Alma materUniversity of Oregon, Harvard University
Known forDeepLabCut deep learning software for animal pose estimation
AwardsHarvard Rowland Fellow, ELLIS Society Scholar, Bertarelli Foundation Chair of Integrative Neuroscience
Scientific career
FieldsNeuroscience
InstitutionsÉcole Polytechnique Fédérale de Lausanne
Websitehttp://www.mousemotorlab.org

Early life and education

Mathis conducted her undergraduate education at the University of Oregon receiving a bachelors of science in 2007.[1] She then worked as a senior research technician and lab manager at the Project A.L.S. Laboratory for Stem Cell Research at Columbia University from 2007 to 2012.[1][2] Working under the mentorship of Dr. Christopher E. Henderson and Dr. Hynek Wichterle, Mathis modelled amyotrophic lateral sclerosis (A.L.S.) using stem cell-derived motor neurons.[2] During her time in the lab, she published two first author scientific papers, one in the Journal of Neuroscience which offered a novel protocol for generating human limb-innervating neural subtypes in vitro for use in neurological disease research,[3] and the other in Nature Biotechnology on benchmarking iPS stem cell lines ability to make motor neurons.[4] Mathis then moved to Boston and joined the graduate program in molecular and cellular biology (MCB) at Harvard University.[5] On her way to completing her PhD, she also completed a master's degree.[1][5] During her PhD, Mathis conducted research on the neural circuits underlying reward prediction errors under the mentorship of Professor Naoshige Uchida at the Harvard Center for Brain Science.[5] In her first year as a graduate student, Mathis received an National Science Foundation Fellowship to fund her graduate research.[6] Mathis was able to merge her interests in motor control with Uchida's expertise in neural recordings and behavioral analysis to forge a new scientific direction in the lab[5] and publish a first author paper in Neuron by the end of her PhD regarding the essential role played by the somatosensory cortex in forelimb motor adaptation in rodents.[7] Near the end of her PhD Mathis was awarded the Rowland Fellowship which provided five years of funding to start her own lab at Harvard's Rowland Institute in Cambridge, MA.[5] Prior to founding the Mathis Lab at Harvard, Mathis was also awarded the Women & the Brain (WATB) Fellowship for Advancement in Brain Science which provided her with the funding to work in Germany under the mentorship of Professor Matthias Bethge at the University of Tübingen.[5] In her postdoctoral work, Mathis focused on pioneering deep learning tools for neural and behavioral analysis which served as a critical step towards her independent career.[8]

Career and research

In 2017, Mathis started her lab at the Rowland Institute at Harvard University with a goal of reverse engineering neural circuits that drive adaptive motor behavior.[5] Through large-scale neural recordings and building novel robotic and machine learning tools, the Mathis Lab probes neural circuits and analyzes behavioral outputs to better understand how brain function relates to behavior.[9] Mathis is dedicated to the concept of open science[10] and as such, the novel deep learning tool she designed, in collaboration with Dr. Alexander Mathis, is open access such that researchers worldwide have access to the code in order to use this tool to analyze animal behaviors in an unbiased and precise way to inform a better understanding of how neural activity drives specific behaviors.[10][11][12] The deep learning tool designed by Mathis is called DeepLabCut[13] which relies on transfer learning to optimize an existing trained neural network to a desired new dataset after sufficient training.[12] Mathis has shown the versatility of this tool on many diverse datasets highlighting the robust design and potential for wide use in fields even beyond neuroscience.[14] Her work has been featured in Nature,[15] Bloomberg Business Week,[16] and The Atlantic.[17]

As of August 2020, Mathis moved to the Swiss Federal Institute of Technology, working within the Brain Mind Institute & Center for Neuroprosthetics as a tenure-track Professor.[18][19] The lab is hosted at the Campus Biotech in Geneva, Switzerland, where Mathis holds the Bertarelli Foundation Chair of Integrative Neuroscience.[20][19]

Awards and honors
  • 2019 - 2020 CZI Essential Open Source Software for Science - grant for DeepLabCut[21]
  • 2019 ELLIS Society Fellow, Natural Intelligence[1]
  • 2018 Mind, Brain & Behavior Harvard University Faculty Award
  • 2018 eLife Travel Grant Award Winner[22]
  • 2017 NVIDIA GPU Grant[20]
  • 2017 - 2022 Rowland Fellowship[5]
  • 2017 Women & the Brain Fellowship for Advancement of Neuroscience[23]
  • 2013 - 2018 National Science Foundation Graduate Research Fellowship Life Sciences – Neuroscience[6]
  • 2013, ’14, ’16 Harvard University Certificate of Distinction in Teaching (MCB80, MCB145)[24]
  • 2014 Dr. Ernest Peralta Fund Award for Best Qualifying Exam proposal & defense, Harvard[18][25]
  • 2012 - 2013 Morris E. Zukerman Graduate Fellowship - awarded to top students in brain sciences at Harvard GSAS[18]

Publications

[26]

  • Mathis, M.W., & Mathis, A. (2020). Deep learning tools for the measurement of animal behavior in neuroscience. Current Opinion in Neurobiology, 60, 1-11.
  • Mathis, A., Yüksekgönül, M., Rogers, B., Bethge, M., & Mathis, M.W. (2019). Pretraining boosts out-of-domain robustness for pose estimation. ArXiv, abs/1909.11229.
  • Nath, T., Mathis, A., Chen, A.C., Patel, A., Bethge, M., & Mathis, M.W. (2019). Using DeepLabCut for 3D markerless pose estimation across species and behaviors. Nature Protocols, 14, 2152-2176.
  • Mathis, A., Mamidanna, P., Cury, K.M., Abe, T., Murthy, V.N., Mathis, M.W.*, & Bethge, M.* (2018). DeepLabCut: markerless pose estimation of user-defined body parts with deep learning. Nature Neuroscience, 21, 1281-1289. *co-senior authors
  • Mathis MW, Mathis A, Uchida N. Somatosensory Cortex Plays an Essential Role in Forelimb Motor Adaptation in Mice, Neuron. 2017. 10.1016/j.neuron.2017.02.049.
  • Ho R, Sances S, Gowing G, Amoroso, MW, et al. ALS disrupts spinal motor neuron maturation and aging pathways within gene co-expression networks. Nature Neuroscience, 2016.
  • Li H, Kuwajima T, Oakley D, et al. Protein Prenylation Constitutes an Endogenous Brake on Axonal Growth. Cell Reports. 2016.16 (2) :545 - 558.
  • Cohen JY, Amoroso MW, Uchida N. Serotonergic neurons signal reward and punishment on multiple timescales. eLife. 2015. 10.7554/eLife.06346
  • Re D B, Le Verche V, Yu C, Amoroso, MW, et al. Necroptosis Drives Motor Neuron Death in Models of Both Sporadic and Familial ALS. Neuron. 2014. 81 :1001 - 1008.
  • Amoroso MW, Croft GF, Williams DJ, et al. Accelerated High-Yield Generation of Limb-Innervating Motor Neurons from Human Stem Cells. Journal of Neuroscience. 2013. 33 (2) :574 - 586.
  • Nédelec S, Peljto M, Shi P, et al. Concentration-Dependent Requirement for Local Protein Synthesis in Motor Neuron Subtype-Specific Response to Axon Guidance Cues. Journal of Neuroscience, 2012. 32 (4) :1496 - 1506.
  • Takazawa T, Croft GF, Amoroso MW, et al. Maturation of Spinal Motor Neurons Derived from Human Embryonic Stem Cells. PLOS ONE, 2012. 7 (7) :e40154.
  • Boulting GL*, Kiskinis E*, Croft GF*, Amoroso, MW*, Oakley, D* et al. A functionally characterized test set of human induced pluripotent stem cells. Nature Biotechnology, 2011. 29 (3) :279 - 286. *co-first authors
  • Bock C, Kiskinis E, Verstappen G, et al. Reference Maps of human ES and iPS cell variation enable high-throughput characterization of pluripotent cell lines. Cell, 2011.144 (3) :439 - 452.

Personal life

Mathis is married to neuroscientist Dr. Alexander Mathis who is an Assistant Professor at the Swiss Federal Institute of Technology.[12][27]

References
  1. "People". adaptive motor control lab. Retrieved 2020-03-25.
  2. "Mackenzie Weygandt Mathis". scholar.harvard.edu. Retrieved 2020-03-25.
  3. Amoroso, Mackenzie W.; Croft, Gist F.; Williams, Damian J.; O'Keeffe, Sean; Carrasco, Monica A.; Davis, Anne R.; Roybon, Laurent; Oakley, Derek H.; Maniatis, Tom; Henderson, Christopher E.; Wichterle, Hynek (2013-01-09). "Accelerated high-yield generation of limb-innervating motor neurons from human stem cells". The Journal of Neuroscience. 33 (2): 574–586. doi:10.1523/JNEUROSCI.0906-12.2013. ISSN 1529-2401. PMC 3711539. PMID 23303937.
  4. Boulting, G.L.*, Kiskinis, E.*, Croft, G.F.*, Amoroso, M.W.*, Oakley, D.H.*, Wainger, B.J., Williams, D.J., Kahler, D.J., Yamaki, M., Davidow, L.S., Rodolfa, C.T., Dimos, J.T., Mikkilineni, S., Macdermott, A.B., Woolf, C.J., Henderson, C.E., Wichterle, H., & Eggan, K.C. (2011). A functionally characterized test set of human induced pluripotent stem cells. Nature Biotechnology, 29, 279-286.
  5. "MCO Graduate to Open Lab Through the Rowland Institute at Harvard". Harvard University - Department of Molecular & Cellular Biology. 2017-03-14. Retrieved 2020-03-25.
  6. "FOUR MCB GRADUATE STUDENTS RECEIVE NSF FELLOWSHIPS IN 2013". Harvard University - Department of Molecular & Cellular Biology. 2013-04-11. Retrieved 2020-03-25.
  7. Mathis, Mackenzie Weygandt; Mathis, Alexander; Uchida, Naoshige (2017-03-22). "Somatosensory Cortex Plays an Essential Role in Forelimb Motor Adaptation in Mice". Neuron. 93 (6): 1493–1503.e6. doi:10.1016/j.neuron.2017.02.049. ISSN 0896-6273. PMC 5491974. PMID 28334611.
  8. Mathis, Alexander; Mamidanna, Pranav; Abe, Taiga; Cury, Kevin M.; Murthy, Venkatesh N.; Mathis, Mackenzie W.; Bethge, Matthias (2018-04-09). "Markerless tracking of user-defined features with deep learning". arXiv:1804.03142 [cs.CV].
  9. "Mackenzie Mathis". Harvard Brain Science Initiative. Retrieved 2020-03-25.
  10. "Interview: A Deeper Cut Into Behavior With Mackenzie Mathis". Neuroscience from Technology Networks. Retrieved 2020-03-25.
  11. "Apple, Google, and Facebook Are Raiding Animal Research Labs". Bloomberg.com. 2019-06-18. Retrieved 2020-03-25.
  12. Yong, Ed (2018-07-03). "A Game-Changing AI Tool for Tracking Animal Movements". The Atlantic. Retrieved 2020-03-25.
  13. "DeepLabCut". adaptive motor control lab. Retrieved 2020-03-25.
  14. "An open-source AI tool available to study movement across behaviors and species". Harvard Gazette. 2018-08-30. Retrieved 2020-03-25.
  15. Kwok, Roberta (30 September 2019). "Deep learning powers a motion-tracking revolution". Nature. 574 (7776): 137–138. Bibcode:2019Natur.574..137K. doi:10.1038/d41586-019-02942-5. PMID 31570871.
  16. https://www.bloomberg.com/news/features/2019-06-18/apple-google-and-facebook-are-raiding-animal-research-labs
  17. https://www.theatlantic.com/science/archive/2018/07/deeplabcut-tracking-animal-movements/564338/
  18. "adaptive motor control lab". adaptive motor control lab. Retrieved 2020-03-25.
  19. Evangelista, Sandy (2019-09-27). "Nominations of EPFL professors". Cite journal requires |journal= (help)
  20. "News". adaptive motor control lab. Retrieved 2020-03-25.
  21. "CZI – Essential Open Source Software for Science". Chan Zuckerberg Initiative. Retrieved 2020-03-25.
  22. "Early-career researcher travel grants 2018: First seven authors selected". eLife. 2018-04-03. Retrieved 2020-03-25.
  23. "BETHGE LAB · Funding". bethgelab.org. Retrieved 2020-03-25.
  24. "awards Archives". Harvard University - Department of Molecular & Cellular Biology. Retrieved 2020-03-25.
  25. "Ernest Peralta Fund Award Archives". Harvard University - Department of Molecular & Cellular Biology. Retrieved 2020-03-25.
  26. "Mackenzie W. Mathis - Google Scholar Citations". scholar.google.com. Retrieved 2020-03-25.
  27. "Alexander Mathis | About". www.people.fas.harvard.edu. Retrieved 2020-03-25.
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